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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,72 @@ | ||
| { | ||
| "@context": "https://w3id.org/codemeta/3.0", | ||
| "@type": "SoftwareSourceCode", | ||
| "targetProduct": { | ||
| "@type": "SoftwareLibrary", | ||
| "name": "brian2", | ||
| "runtimePlatform": [ | ||
| "Python", | ||
| "Python 3" | ||
| ] | ||
| }, | ||
| "maintainer": [ | ||
| { | ||
| "@id": "https://orcid.org/0000-0002-2648-4790" | ||
| } | ||
| ], | ||
| "author": [ | ||
| { | ||
| "@id": "https://orcid.org/0000-0002-2648-4790", | ||
| "@type": "Person", | ||
| "familyName": "Stimberg", | ||
| "givenName": "Marcel", | ||
| "identifier": "https://github.com/mstimberg" | ||
| }, | ||
| { | ||
| "@id": "https://orcid.org/0000-0003-1007-6474", | ||
| "@type": "Person", | ||
| "familyName": "Goodman", | ||
| "givenName": "Dan F. M.", | ||
| "identifier": "https://github.com/thesamovar" | ||
| }, | ||
| { | ||
| "@id": "https://orcid.org/0000-0002-1734-6070", | ||
| "@type": "Person", | ||
| "familyName": "Evans", | ||
| "givenName": "Benjamin D.", | ||
| "identifier": "https://github.com/bdevans" | ||
| }, | ||
| { | ||
| "@id": "https://orcid.org/0000-0003-0110-1623", | ||
| "@type": "Person", | ||
| "familyName": "Brette", | ||
| "givenName": "Romain", | ||
| "identifier": "https://github.com/romainbrette" | ||
| } | ||
| ], | ||
| "codeRepository": "https://github.com/brian-team/brian2", | ||
| "continuousIntegration": "https://github.com/brian-team/brian2/actions", | ||
| "issueTracker": "https://github.com/brian-team/brian2/issues", | ||
| "keywords": [ | ||
| "biological neural networks", | ||
| "computational neuroscience", | ||
| "neural networks", | ||
| "research", | ||
| "simulation", | ||
| "spiking neurons" | ||
| ], | ||
| "operatingSystem": "OS Independent", | ||
| "softwareHelp": "https://brian2.readthedocs.io/", | ||
| "developmentStatus": "active", | ||
| "description": "A clock-driven simulator for spiking neural networks", | ||
| "license": "https://spdx.org/licenses/CECILL-2.1", | ||
| "name": "Brian simulator", | ||
| "url": "https://briansimulator.org", | ||
| "programmingLanguage": [ | ||
| "Python" | ||
| ], | ||
| "runtimePlatform": [ | ||
| "Python", | ||
| "Python 3" | ||
| ] | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,52 @@ | ||
| import re | ||
| import os | ||
| import pkg_resources | ||
| import tomllib | ||
| import json | ||
| import sys | ||
|
|
||
|
|
||
| if __name__ == "__main__": | ||
| if not len(sys.argv) == 2: | ||
| raise ValueError("Usage: python create_codemeta.py <version>") | ||
| basedir = os.path.join(os.path.dirname(os.path.abspath(__file__)), "..") | ||
|
|
||
| with open(os.path.join(basedir, "pyproject.toml"), "rb") as f: | ||
| pyproject = tomllib.load(f) | ||
| with open(os.path.join(basedir, ".codemeta", "codemeta_base.json"), "r", encoding="utf-8") as f: | ||
| codemeta = json.load(f) | ||
| with open(os.path.join(basedir, "AUTHORS"), "r", encoding="utf-8") as f: | ||
| authors = f.read().splitlines()[6:] | ||
|
|
||
| # Add software requirements from pyproject.toml | ||
| parsed_deps = pkg_resources.parse_requirements(pyproject['project']['dependencies']) | ||
| codemeta["softwareRequirements"] = [] | ||
| for dep in parsed_deps: | ||
| version = ",".join(f"{op}{v}" for op,v in dep.specs) | ||
| requirement = {"name": dep.project_name,"@type": "SoftwareApplication", "runtimePlatform": "Python 3"} | ||
| if version: | ||
| requirement["version"] = version | ||
| codemeta["softwareRequirements"].append(requirement) | ||
|
|
||
| # Add contributors from AUTHORS | ||
| codemeta["contributor"] = [] | ||
| for author in authors: | ||
| matches = re.match(r"^(\w[\w-]*?) ([\w]+[.]? )??(\w+) \(@(.*)\)$", author) | ||
| if not matches: | ||
| raise ValueError("author not matched:", author) | ||
| given_name, middle_name, family_name, github = matches.groups() | ||
|
|
||
| contributor = {"@type": "Person", "givenName": given_name, "familyName": family_name, "identifier": f"https://github.com/{github}"} | ||
| # FIXME: additionalName does not seem to be recognized by codemeta (validation fails) | ||
| if middle_name: | ||
| contributor["givenName"] += " " + middle_name.strip() | ||
| codemeta["contributor"].append(contributor) | ||
|
|
||
| # Add version from setuptools_scm | ||
| version = sys.argv[1] | ||
| codemeta["version"] = version | ||
| codemeta["softwareVersion"] = version | ||
|
|
||
| # Write codemeta.json | ||
| with open(os.path.join(basedir, "codemeta.json"), "w", encoding="utf-8") as f: | ||
| json.dump(codemeta, f, indent=2, ensure_ascii=False) |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
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| name: Update metadata after release | ||
|
|
||
| on: workflow_dispatch | ||
|
|
||
| jobs: | ||
| build: | ||
| runs-on: ubuntu-latest | ||
| permissions: | ||
| # Give the default GITHUB_TOKEN write permission to commit and push the | ||
| # added or changed files to the repository. | ||
| contents: write | ||
| pull-requests: write | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| with: | ||
| persist-credentials: true # Needed to push changes back to the repository | ||
| fetch-depth: 0 | ||
| fetch-tags: true | ||
| - name: Install Python | ||
| uses: actions/setup-python@v5 | ||
| with: | ||
| python-version: 3.12 | ||
| - name: Install dependencies | ||
| run: python -m pip install cffconvert pyaml ruamel.yaml requests | ||
| - name: Update metadata | ||
| run: python dev/continuous-integration/update_zenodo_swh.py | ||
| - name: Verify CITATION.cff | ||
| run: cffconvert --validate | ||
| - name: Create Pull Request | ||
| uses: peter-evans/create-pull-request@v7 | ||
| with: | ||
| delete-branch: true | ||
| branch: update-metadata-post-release | ||
| title: Update CITATION.cff and README.md with metadata from Zenodo/SWH | ||
| commit-message: | | ||
| Update CITATION.cff and README.md with metadata from Zenodo/SWH | ||
| [ci skip] |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,29 @@ | ||
| name: " GitHub Actions Security Analysis with Zizmor" | ||
|
|
||
| # The scheduled workflow runs every Sunday at 23:45 UTC. | ||
| on: | ||
| push: | ||
| schedule: | ||
| - cron: '45 23 * * 0' | ||
|
|
||
| jobs: | ||
| build: | ||
| runs-on: ubuntu-latest | ||
| permissions: | ||
| security-events: write | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| with: | ||
| persist-credentials: false | ||
| - name: Setup Rust | ||
| uses: actions-rust-lang/setup-rust-toolchain@v1 | ||
| - name: Get zizmor | ||
| run: cargo install zizmor | ||
| # https://github.com/woodruffw/zizmor | ||
| - name: Run zizmor | ||
| run: zizmor --format sarif . > results.sarif | ||
| - name: Upload SARIF file | ||
| uses: github/codeql-action/upload-sarif@v3 | ||
| with: | ||
| sarif_file: results.sarif | ||
| category: zizmor |
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